I agree with most of what you say, aside from being shocked by some preferences - not doing Forgotten Sanctum because there is nothing to gain... is beyond my ability to understand :-). Especially, as you claim to care for story more then gameplay.
I generally like the changes to the systems they did in Deadfire. However, they did struggle with finding a right difficulty balance. I dislike were it ultimately led, with HP floats in megabosses and DLCs. Having beaten those recently, I must say it was not experience I enjoyed, as megabosses tend to keep “a surprise” until late into the combat (like spider giving injuries, or mage unlocking all sigils permanently) which meant you lost a lot of time just to get screwed by something you couldn’t know was coming.
I really enjoyed how Deadfire handled items - I found it simply better then other games, and I found myself constantly torn by what to equip. Unlike yourself, I find myself short on money, as I do tend to upgrade a lot of items I find. I never sell uniques.
This game still surprises me. Recently, I wrapped up my third playthrough, this time as Hunter from White that Wends, and ended up supporting Huana. I saw Takehu developers in a different way then usual, and while I quite disliked him before, the transformation and arc he got this time, was quite compelling.
I thought that the Woedica addition they made in the last patch, help a lot. Too bad, they didn’t quite nail the sound work, and the new lines when talking to Eothas (be it new new or related to DLCs) sound noticeably different both and sound and volume, played back to back with original content.
My main gripe is the ending, and overall lack of narrative forward momentum. I would happily trade one of the DLC, for an expanded Ukaizo which would better flesh out choices you have made throughout your journey. I also disliked how returning companions’ various endings from PoE1 got reduced in scope. There was a promise of change and development that was squashed. I almost wish, they would simply stick to one ending they would find more fitting to Deadfire and develop that, rather then what they did. The fact, that my first playthrough was with endings which really seemed to draw a short straw (Eder being a governor, Pallegina a kind wayfarer, Aloth suppressing Isylmir, and taking over the Leaden Key) might have contributed to this dislike.